Name: Desulfobacter vibrioformis B54
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 3963

Type strain:

Species: Desulfobacter vibrioformis

Strain Designation: B54

Culture col. no.: DSM 8776

Strain history: <- T. Lien; B54 <- T. Lien {1985}

NCBI tax ID(s): 1121398 (strain), 34031 (species)

SI-ID 48542

DSM 8776, NCIMB 13525

Special Collections

Section

Desulfobacter vibrioformis B54 is an anaerobe, Gram-negative, vibrio-shaped bacterium that was isolated from water-oil separation system on oil platform.

Gram-negative
vibrio-shaped
anaerobe
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Deltaproteobacteria*
	Order	*Desulfobacterales*
	Family	*Desulfobacteraceae*
	Genus	*Desulfobacter*
	Species	**Desulfobacter vibrioformis**
	Full Scientific Name (LPSN)	Desulfobacter vibrioformis Lien and Beeder 1997

Information on morphological and physiological properties Morphology

[Ref.: #23205]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %92.383

[Ref.: #23205]	Cell length	4.5-8.0 µm

[Ref.: #23205]	Cell width	1.9-2.3 µm

[Ref.: #23205]	Cell shape	vibrio-shaped

[Ref.: #23205]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3398]

Culture medium

DESULFOBACTER MEDIUM (DSMZ Medium 195)

[Ref.: #3398]

Culture medium growth

[Ref.: #3398]

Culture medium link

Medium recipe at MediaDive

[Ref.: #3398]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #3398]	growth	30 °C
[Ref.: #23205]	growth	5-38 °C
[Ref.: #23205]	optimum	33 °C

	pH	Kind of pH		pH
[Ref.: #23205]			optimum	6.8-7.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #3398]

Oxygen tolerance

anaerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #23205]		NaCl		growth	1-5	%
[Ref.: #23205]		MgCl2		growth	>0.3	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #23205]	acetate ChEBI	+	carbon source
[Ref.: #23205]	acetate ChEBI	+	electron donor
[Ref.: #23205]	sulfate ChEBI	+	reduction
[Ref.: #23205]	sulfite ChEBI	+	reduction
[Ref.: #23205]	thiosulfate ChEBI	+	reduction

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #3398]	Sample type/isolated from	water-oil separation system on oil platform
[Ref.: #3398]	Geographic location (country and/or sea, region)	North Sea
[Ref.: #3398]	Country	Norway
[Ref.: #3398]	Country ISO 3 Code	NOR
[Ref.: #3398]	Continent	Europe

[Ref.: #23205]	Sample type/isolated from	production water from an oil separation system on a North Sea oil production platform
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Oil reservoir
#Environmental	#Aquatic	-

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #3398]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #3398]	Desulfobacter vibrioforme B54 16S ribosomal RNA gene, complete sequence	U12254	1516	GenBank ENA	34031 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Desulfobacter vibrioformis DSM 8776	GCA_000745975	scaffold	GenBank ENA	1121398 tax ID	*
[Ref.: #66792]	Desulfobacter vibrioformis DSM 8776	1121398.3	wgs	PATRIC	1121398 tax ID	*
[Ref.: #66792]	Desulfobacter vibrioformis DSM 8776	2571042011	draft	JGI IMG/M	1121398 tax ID	*

[Ref.: #3398]	GC-content	47.6 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #23205]	GC-content	47.0 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Desulfobacter vibrioformis DSM 8776 DSM 8776 NCBI: GCA_000745975.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Desulfobacter vibrioformis DSM 8776 DSM 8776 NCBI: GCA_000745975.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	92.383	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	81.723	yes
[Ref.: #69480]	aerobic	aerobicⓘ	no	88.578	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	86.673	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	86.646	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	71.804	no

Availability in culture collections External links

[Ref.: #3398]

Culture collection no.

DSM 8776

[Ref.: #73472]

SI-ID 48542

References

#3398

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 8776

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#23205

Torleiv Lien, Janiche Beeder: Desulfobacter vibrioformis sp. nov., a Sulfate Reducer from a Water-Oil Separation System. IJSEM 47: 1124 - 1128 1997 ( DOI 10.1099/00207713-47-4-1124 , PubMed 9336918 )

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#73472

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID48542.1 )

* These data were automatically processed and therefore are not curated

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Desulfobacter vibrioformis DSM 8776 DSM 8776

Desulfobacter vibrioformis DSM 8776 DSM 8776

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